| Filename | Total | Flagged As Poor Quality | Sequence Length | %GC |
|---|---|---|---|---|
| Ps2Ex3M1_Heter_6month_07_07_2016_F3_80_FemAligned.sortedByCoord.out.bam | 87,396,876 | 0 | 8-150 | 51 |
| Ps2Ex3M1_Heter_6month_07_07_2016_F3_81_FemAligned.sortedByCoord.out.bam | 86,458,883 | 0 | 3-150 | 51 |
| Ps2Ex3M1_Heter_6month_07_07_2016_F3_84_FemAligned.sortedByCoord.out.bam | 98,729,835 | 0 | 2-150 | 57 |
| Ps2Ex3M1_Heter_6month_07_07_2016_F3_89_FemAligned.sortedByCoord.out.bam | 91,119,306 | 0 | 8-150 | 50 |
| Ps2Ex3M1_Hom_6month_07_07_2016_F3_78_FemAligned.sortedByCoord.out.bam | 86,141,677 | 0 | 8-150 | 50 |
| Ps2Ex3M1_Hom_6month_07_07_2016_F3_82_FemAligned.sortedByCoord.out.bam | 74,106,252 | 0 | 3-150 | 50 |
| Ps2Ex3M1_Hom_6month_07_07_2016_F3_83_FemAligned.sortedByCoord.out.bam | 81,899,755 | 0 | 6-150 | 51 |
| Ps2Ex3M1_Hom_6month_07_07_2016_F3_85_FemAligned.sortedByCoord.out.bam | 85,231,920 | 0 | 8-150 | 51 |
| Ps2Ex3M1_WT_6month_07_07_2016_F3_79_FemAligned.sortedByCoord.out.bam | 61,896,154 | 0 | 5-150 | 49 |
| Ps2Ex3M1_WT_6month_07_07_2016_F3_86_FemAligned.sortedByCoord.out.bam | 66,240,830 | 0 | 8-150 | 47 |
| Ps2Ex3M1_WT_6month_07_07_2016_F3_88_FemAligned.sortedByCoord.out.bam | 82,993,606 | 0 | 8-150 | 51 |
| Ps2Ex3M1_WT_6month_07_07_2016_F3_95_FemAligned.sortedByCoord.out.bam | 70,719,422 | 0 | 2-150 | 48 |
Library Sizes ranged between 61,896,154 and 98,729,835 reads.
Read totals for each library. Duplicated reads are conventionally an high overestimate at this point.
Summary of FastQC flags for each parameter
Heatmap showing mean base qualities for each library
Heatmap showing mean sequence qualities for each library
Heatmap of summed base distributions along each read
GC Content Heatmap normalised to theoretical GC content in the Drerio Genome
GC Content Distributions for all reads showing theoretical GC content from the Drerio Genome
Universal Adapter Content
Total overrepresented sequences for each library
## Overrepresented_sequences missing from Ps2Ex3M1_Heter_6month_07_07_2016_F3_80_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Heter_6month_07_07_2016_F3_81_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Heter_6month_07_07_2016_F3_84_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Heter_6month_07_07_2016_F3_89_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Hom_6month_07_07_2016_F3_78_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Hom_6month_07_07_2016_F3_82_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Hom_6month_07_07_2016_F3_83_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_Hom_6month_07_07_2016_F3_85_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_WT_6month_07_07_2016_F3_79_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_WT_6month_07_07_2016_F3_86_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_WT_6month_07_07_2016_F3_88_FemAligned.sortedByCoord.out.bam## Overrepresented_sequences missing from Ps2Ex3M1_WT_6month_07_07_2016_F3_95_FemAligned.sortedByCoord.out.bam## No overrepresented sequences were detected by FastQCR version 3.6.1 (2019-07-05)
Platform: x86_64-pc-linux-gnu (64-bit)
locale: LC_CTYPE=en_AU.UTF-8, LC_NUMERIC=C, LC_TIME=en_AU.UTF-8, LC_COLLATE=en_AU.UTF-8, LC_MONETARY=en_AU.UTF-8, LC_MESSAGES=en_AU.UTF-8, LC_PAPER=en_AU.UTF-8, LC_NAME=C, LC_ADDRESS=C, LC_TELEPHONE=C, LC_MEASUREMENT=en_AU.UTF-8 and LC_IDENTIFICATION=C
attached base packages: parallel, stats, graphics, grDevices, utils, datasets, methods and base
other attached packages: readr(v.1.3.1), stringr(v.1.4.0), magrittr(v.1.5), scales(v.1.1.0), pander(v.0.6.3), kableExtra(v.1.1.0), dplyr(v.0.8.3), ngsReports(v.1.1.4), tibble(v.2.1.3), ggplot2(v.3.2.1) and BiocGenerics(v.0.32.0)
loaded via a namespace (and not attached): bitops(v.1.0-6), matrixStats(v.0.55.0), lubridate(v.1.7.4), webshot(v.0.5.1), RColorBrewer(v.1.1-2), httr(v.1.4.1), GenomeInfoDb(v.1.22.0), tools(v.3.6.1), backports(v.1.1.5), R6(v.2.4.1), lazyeval(v.0.2.2), colorspace(v.1.4-1), withr(v.2.1.2), tidyselect(v.0.2.5), compiler(v.3.6.1), rvest(v.0.3.5), Biobase(v.2.46.0), Cairo(v.1.5-10), flashClust(v.1.01-2), xml2(v.1.2.2), DelayedArray(v.0.12.0), plotly(v.4.9.1), ggdendro(v.0.1-20), labeling(v.0.3), digest(v.0.6.22), Rsamtools(v.2.2.1), rmarkdown(v.1.17), XVector(v.0.26.0), pkgconfig(v.2.0.3), htmltools(v.0.4.0), fastmap(v.1.0.1), FactoMineR(v.1.42), highr(v.0.8), htmlwidgets(v.1.5.1), rlang(v.0.4.1), rstudioapi(v.0.10), shiny(v.1.4.0), farver(v.2.0.1), zoo(v.1.8-6), hwriter(v.1.3.2), jsonlite(v.1.6), crosstalk(v.1.0.0), BiocParallel(v.1.20.0), RCurl(v.1.95-4.12), GenomeInfoDbData(v.1.2.2), leaps(v.3.0), Matrix(v.1.2-17), Rcpp(v.1.0.3), munsell(v.0.5.0), S4Vectors(v.0.24.0), lifecycle(v.0.1.0), scatterplot3d(v.0.3-41), stringi(v.1.4.3), yaml(v.2.2.0), MASS(v.7.3-51.4), SummarizedExperiment(v.1.16.0), zlibbioc(v.1.32.0), plyr(v.1.8.4), grid(v.3.6.1), promises(v.1.1.0), crayon(v.1.3.4), lattice(v.0.20-38), Biostrings(v.2.54.0), hms(v.0.5.2), zeallot(v.0.1.0), knitr(v.1.26), pillar(v.1.4.2), GenomicRanges(v.1.38.0), reshape2(v.1.4.3), stats4(v.3.6.1), glue(v.1.3.1), packrat(v.0.5.0), evaluate(v.0.14), ShortRead(v.1.44.0), latticeExtra(v.0.6-28), data.table(v.1.12.6), httpuv(v.1.5.2), vctrs(v.0.2.0), gtable(v.0.3.0), purrr(v.0.3.3), tidyr(v.1.0.0), assertthat(v.0.2.1), xfun(v.0.11), mime(v.0.7), xtable(v.1.8-4), later(v.1.0.0), viridisLite(v.0.3.0), truncnorm(v.1.0-8), GenomicAlignments(v.1.22.1), IRanges(v.2.20.0), cluster(v.2.1.0) and ellipsis(v.0.3.0)